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...uot;) <environment: namespace:base> > showMethods("print") Function "print": <not a generic function> Don''t the two results contradict each other? Or do I have a terrible misunderstanding of what comprises a generic function? Thx, Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

This problem is likely to be specific to Windows, and particularly Win7. After a successful build of a package (R CMD build addendum), I immediately run an R CMD check for the same package. Not always, but _very_ often, I get the following error: C:\Users\nisabbe\Documents\@Doctoraat\R>R CMD check addendum Loading required package: tcltk Loading Tcl/Tk interface ... done Loading required package: Hmisc Loading required package: survival Loading required package: stats Loading required package: graphics Loading required package: splines Attachi...

...r each dimension, an indexer for that dimension. Now I would like to get the element pointed at by the list. The obvious solutions don't seem to work, and I can't seem to get do.call to call the indexer ('[') on my multidimensional object. Any suggestions? Thanks in advance, Nick Sabbe -- ping: nick.sabbe at ugent.be link: http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove

...e package? I don''t just want a non-package bound copy of the function, I want to make sure that when I call pkg::plot.something, this works as before, but when, from within this function, pkg:: plot.something.internal is called, I want it to call _my_ version of it. Any takes? Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

...e list of the functions available to an R package developer, nor, strangely, questions about that. Does such a thing exist, or are we up to hoping we find what we are looking for in the header files? If it does not exist already, I would surely be willing to work on it. Thanks for any input. Nick Sabbe -- ping: nick.sabbe at ugent.be link: http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove

Hi all. I am currently attempting to build a list of sparse matrixes. That I have already achieved, by > vmat <- list() > for (i in 1:n) { > vmat <- c(vmat, sparseMatrix(i,j,x=data) > } How I am trying to select those elements from the list where the column e.g. 999 is not null. I can do this for one of the sparse matrices with > which(vmat[[1]][,999] != 0) which

...t R does not recognize ''plot'' as a generic function, and as such, showMethods does not work. This seems to conflict with the documentation for plot. So 2 questions: . How can I find the code of plot.glmnet . Why is plot not seen as generic? Thx. Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

...orks. I set col.ticks to match the color of my abline (in the nonsimplified code), and this works too, but unfortunately, the label below the tick is not in this color, and a parameter for this is not present in axis. Suggestions for either? Note: I''m on windows 7 with R 2.13. Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

...the best (as in: quickest) way of transforming this list of lists to a dataframe? The answer to this is probably based upon knowledge of the inner workings of R? Or is there any way in which this depends on the specifics of my function (for nontrivial functions and list sizes)? Thanks! Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

Hi there, Could someone help me with the following programming problem..? I have written a function that works for my intended purpose, but it is quite closely tied to a particular dataframe and the names of the variables in this dataframe. However, I'd like to use the same function for different dataframes and variables. My problem is that I'm not quite sure how to tell my function in

...ning and R CMD check. I suspect other people may run into this sooner or later. If not or if my/our analysis is wrong/incomplete I will gladly stand corrected. I'll leave it to you gurus to judge. Thanks for R! (And another shout out to Stefan, who diligently helped me) Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

While building/checking a package of mine that depends on glmnet, I got the following message: * checking whether the name space can be loaded with stated dependencies ...Warn ing: running command ''"C:/Users/nisabbe/Documents/R/R-2.13.1/bin/i386/Rterm.exe" R_DEFAULT_PACKAGES=NULL --vanilla --slave -f C:\Users\nisabbe\AppData\Local\Tem p\RtmpZpjj07\Rin121ae93'' had status 1 WARNING Error: .onLoad failed in loadNamespace() for ''glmnet'', details: call: cat("Loaded glmn...

...r or not NA''s are included. I''m convinced that some package holds a readymade solution, and I''m trying to switch from always writing my own stuff (get the number of levels per column, then use some apply magic) to using what is there, so thanks for any hints, Nick Sabbe -- ping: nick.sabbe@ugent.be link: <http://biomath.ugent.be/> http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove [[alternative HTML version deleted]]

...9; dataframe), so I need all the speed I can get. Does anybody know of a way that is quicker than the above? Note: because of other uses of the dataframe, I don't have the option to do this conversion before the imputation, so I really need the conversion itself to work quickly. Thanks, Nick Sabbe -- ping: nick.sabbe at ugent.be link: http://biomath.ugent.be wink: A1.056, Coupure Links 653, 9000 Gent ring: 09/264.59.36 -- Do Not Disapprove

Folks, I have a 'matching' matrix between variables A, X, L, O: > a <- structure(c(1, 0.41, 0.58, 0.75, 0.41, 1, 0.6, 0.86, 0.58, 0.6, 1, 0.83, 0.75, 0.86, 0.83, 1), .Dim = c(4L, 4L), .Dimnames = list( c("A", "X", "L", "O"), c("A", "X", "L", "O"))) > a A X L O A 1.00 0.41

Hi All,  I have been trying to use glmnet package to do LASSO linear regression. my x data is a matrix n_row by n_col and y is a vector of size n_row corresponding to the vector data. The number of n_col is much more larger than the number of n_row. I do the following: fits = glmnet(x, y, family="multinomial")I have been following this

Hello there R-help, I'm not sure if this should be posted here - so apologies if this is the case. I've found a problem while using rle and am proposing a solution to the issue. Description: I ran into a niggle with rle today when working with vectors with NA values (using R 2.31.0 on Windows 7 x64). It transpires that a run of NA values is not encoded in the same way as a run of other

Dear R-list member, I'm using the function pmnorm() (-->library(mnormt)) within a for-loop. Certain parameter values leads to an error message: "(In sqrt(diag(S)) : NaNs produced, In sqrt(1/diag(V)) : NaNs produced, In cov2cor(S) : diag(.) had 0 or NA entries; non-finite result is doubtful)" obviously because "NaNs" were produced. Is it possible to tell R that it

Hi! This is my first time posting. I've read the general rules and guidelines, but please bear with me if I make some fatal error in posting. Anyway, I have a continuous response and 29 predictors made up of continuous variables and nominal and ordinal categorical variables. I'd like to do lasso on these, but I get an error. The way I am using "lars" doesn't allow for the

Dear all I would like to ask you if an assignment can be done inside a lapply statement. For example I would like to covert a double nested for loop for (i in c(1:dimx)){ for (j in c(1:dimy)){ Powermap[i,j] <- Pr(c(i,j),c(PRX,PRY),f) } } to something like that: ij<-expand.grid(i=seq(1:dimx),j=(1:dimy)) unlist(lapply(1:nrow(ij),function(rowId) { return